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2017-05-16check_hkl: Calculate resolution of reflection with asymmetric indices for ↵Thomas White
both possible and measured reflections Previously, it used whichever indices it found first. This made the resolutions different enough to fall into different bins, and screwed up the completeness (fortunately, rarely).
2017-05-03hdfsee: Use new imagefile APIThomas White
2017-05-03HDF5 reading under new APIThomas White
2017-05-02Skeleton image file APIThomas White
2017-05-02Initial CBF stuffThomas White
2017-03-31geoptimiser: Show peak information when there is a problemThomas White
2017-03-31geoptimiser: Fix rounding of peak coordinatesThomas White
Peak locations in CrystFEL are considered to be distances (in pixel units) from the corner of the detector panel. Therefore, simple truncation is needed here, not rounding.
2017-03-31Offset peak locations from HDF5 or CXI files by 0.5,0.5Thomas White
CrystFEL considers all peak locations to be distances from the corner of the detector panel, in pixel units, consistent with its description of detector geometry. In contrast, Cheetah considers the peak locations to be pixel indices in the data array. Therefore, a half-pixel offset is needed when importing the peak lists. For users who need the old behaviour, this commit adds a new option indexamajig --no-half-pixel-shift to deactivate this offset.
2017-03-24indexamajig: Format --help and fix typosThomas White
2017-03-24Merge branch 'valerio/peakfinder8'Thomas White
2017-03-13Added saturated peak management to peakfinder8Valerio Mariani
2017-03-13process_hkl: Add event IDs to "--stat" fileThomas White
2017-03-11Removed unused iargValerio Mariani
2017-03-10Fixed a couple of bugs reported by TomValerio Mariani
2017-03-10compare_hkl: Add --min-measurementsThomas White
2017-03-10Peakfinder8 in CrystFEL. Same results as Anton's Cheetah implementationValerio Mariani
2017-03-08Allow indexing system to store its own data, independently of indexing methodsThomas White
Previously, the indexing system passed all the information on to the indexing engines and then forgot about it. That made it difficult to do things like check the indexing solution after prediction refinement, because the target unit cell was unavailable. Now, the indexing system itself can keep some information. Of course, that information includes the private pointers for the indexing engines themselves. I took the opportunity to streamline things a little bit. The caller can now set up the indexing system in one step, without having to separately parse the names of the indexing methods. The caller no longer has to keep track of a separate array of methods, instead just one structure which contains everything.
2017-03-08compare_hkl: Fix combination of sigma(I) values for d1sig and d2sigThomas White
2017-03-03cell_explorer: Better handling of dodgy cellsThomas White
2017-03-03partialator: Better handling of very small number of crystalsThomas White
2017-03-03geoptimiser: Call g_type_init() only if GLib is oldThomas White
2017-02-24get_hkl: Fix a segfault when there are no notesThomas White
2017-02-02Cannot use stamp_response() hereThomas White
We have a pipe index (0 to n_read), not a process index (0 to n_proc). These are two separate lists, with no correspondence between them. See 7dbbfa4 for another fix related to this issue.
2017-02-02indexamajig: Add ping mechanism to avoid timing out when trying lots of indexersThomas White
2017-02-02cell_explorer: Fix labels once and for allThomas White
2017-02-01partialator: Exit if point group is unrecognisedThomas White
2017-01-12indexamajig: Fix hanging on "Waiting for last patterns"Thomas White
2016-11-24partialator: Fix counting of imagesThomas White
2016-11-16partialator: Fix segfault when not using --custom-splitThomas White
Crash introduced by 775bbc2d. How silly of me. Thanks to Ken Beyerlein for fixing this.
2016-11-07render_hkl: Show max value, and improve documentation for --scale-topThomas White
2016-11-04Add (more) warnings about unique axesThomas White
2016-10-28partialator: Show some useful numbers about csplit datasetsThomas White
2016-10-28partialator: Don't write a dataset if it contains no crystalsThomas White
2016-10-10Fixed bug with positioning of secondary ASICsValerio Mariani
2016-10-10Geoptimiser now uses detector shift informationValerio Mariani
2016-10-10New default min peak distance for geoptimiserValerio Mariani
2016-10-10cell_explorer: Add "Save cell" functionThomas White
2016-10-06pattern_sim: Zero image array before each frameThomas White
2016-10-06pattern_sim: Free stuff at endThomas White
2016-08-16indexamajig: Detect and kill hung worker processesThomas White
2016-08-16Remove unused memberThomas White
2016-08-16get_hkl: Preserve input file's notes in output fileThomas White
2016-08-16get_hkl, partialator, process_hkl: Add command line and version infoThomas White
2016-08-10Allow peak table location to be given in geometry fileThomas White
2016-07-29Use z component in GPU simulationThomas White
2016-07-29Panel coordinate fixes for GPU simulationThomas White
2016-07-29hdfsee: Fix crash because of panel nameThomas White
2016-07-29hdfsee: Fix coordinatesThomas White
2016-07-15partial_sim: Fix rounding for sketchesThomas White
2016-07-15geoptimiser: Fix correction of average displacementsThomas White
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